Laboratorio de Investigación en Agentes Antibacterianos (LIAA-UdeC), Facultad de Ciencias Biológicas, Universidad de Concepción, Concepción, Chile; Departamento de Medicina Interna, Facultad de Medicina, Universidad de Concepción, Concepción, Chile; Millennium Nucleus for Collaborative Research on Bacterial Resistance (MICROB-R), Chile.
Department of Clinical Analysis, School of Pharmacy, University of São Paulo, São Paulo, Brazil; Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
J Glob Antimicrob Resist. 2020 Jun;21:1-2. doi: 10.1016/j.jgar.2020.02.004. Epub 2020 Feb 12.
Serratia marcescens is a neglected opportunistic pathogen of public-health concern, especially due to its antimicrobial resistance features. Here we report the draft genome sequence of the first KPC-2 and SRT-2 co-producing S. marcescens strain (UCO-366) recovered from a catheter tip culture of a hospitalised patient in Santiago, Chile, in 2014.
Whole genomic DNA of strain UCO-366 was extracted and was sequenced using an Illumina NextSeq platform. De novo genome assembly was performed using Unicycler v.0.4.0 and the genome was annotated by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP) v.4.8. Genomic features were analysed using bioinformatic tools available at the Center for Genomic Epidemiology, the Comprehensive Antibiotic Resistance Database (CARD) and Pathosystems Resource Integration Center (PATRIC).
The genome size of strain UCO-366 was 5 267 357bp, with a G+C content of 59.7% and comprising 5299 coding sequences (CDS), 42 tRNAs and 115 pseudogenes. The genome of UCO-366 also included an IncL/M plasmid. The resistome comprised various antimicrobial resistance genes (ARGs) conferring resistance to carbapenems, cephalosporins, aminoglycosides, sulfonamides, chloramphenicol, rifampicin and fluoroquinolones. Importantly, S. marcescens UCO-366 harboured bla and bla, representing the first description of these β-lactamase genes in this species in Chile.
Here we report the genome of the first KPC-positive multidrug-resistant S. marcescens strain identified in Chile, which co-harboured several ARGs. The genome sequence of S. marcescens UCO-366 provides an insight into the antimicrobial resistance characteristics of this species in this country and offers important data for further genomic studies on this critical priority pathogen.
粘质沙雷氏菌是一种被忽视的机会性病原体，引起了公共卫生关注，尤其是由于其具有抗微生物的耐药特征。在此，我们报告了 2014 年智利圣地亚哥一位住院患者的导管尖端培养物中分离出的首例产 KPC-2 和 SRT-2 的同时黏质沙雷氏菌（UCO-366）菌株的基因组草案序列。
提取 UCO-366 菌株的全基因组 DNA，使用 Illumina NextSeq 平台进行测序。使用 Unicycler v.0.4.0 进行从头基因组组装，并使用 NCBI 原核基因组注释管道（PGAP）v.4.8 进行基因组注释。使用基因组流行病学中心、综合抗生素耐药数据库（CARD）和病原系统资源整合中心（PATRIC）提供的生物信息学工具分析基因组特征。
UCO-366 菌株的基因组大小为 5267357bp，G+C 含量为 59.7%，包含 5299 个编码序列（CDS）、42 个 tRNA 和 115 个假基因。UCO-366 基因组还包含一个 IncL/M 质粒。耐药组包括各种赋予碳青霉烯类、头孢菌素类、氨基糖苷类、磺胺类、氯霉素类、利福平类和氟喹诺酮类耐药性的抗生素耐药基因（ARGs）。重要的是，粘质沙雷氏菌 UCO-366 携带 bla 和 bla，这代表在智利首次描述了这些β-内酰胺酶基因。
在此，我们报告了在智利首次发现的产 KPC 阳性的多重耐药粘质沙雷氏菌菌株的基因组，该菌株还共同携带了几种 ARGs。粘质沙雷氏菌 UCO-366 的基因组序列为了解该国该物种的抗微生物耐药特征提供了深入了解，并为进一步研究该关键优先病原体的基因组提供了重要数据。
